Huiguang Yi

need read/write subroutine for cholmod_factor object and cholmod_common factor

2

I'm always frustrated when I need to factorize a matrix A in to LL' in step1 and then solve LL'x=b in step2. I need first write the cholmod_factor object L...

reads did not aligned to 3' end

3

Here is my command to simulated reads: ./simulator.py transcriptome -rt /data/hgyi/work/RNAseq_quantTool/Homo_sapiens.GRCh38.cdna.all.fa -c ../pre-trained_models/human_NA12878_dRNA_Bham1_guppy/training -e ../pre-trained_models/human_NA12878_dRNA_Bham1_guppy/expression_abundance.tsv -n 100000 --no_model_ir. I found most of reads simulated did not aligned to (not even...

Dear author: I am currently using : kallisto quant -i kalind -o kalout --single -l 150 -s1 errlongreads.fastq I want to know the optimized kallisto parameters for long reads dRNA...

How to filter low quality Kmers in raw fastq file

1

Hi, Dr Zhao: Does bindash have option to filter out low coverage or low quality Kmers in fastq file? I believe these Kmers will bias distance estimation Many thanks